collapse transformation is maybe the most complex feature to predict in AE .
it really can change a lot of things since it affects all kinds of situations besides transformations ( making the comp bigger without losing quality).
what you should really do is change the size withing the current comp and not pre-compose it i.e not use the snowflake if it doesnt do the job.
one way of doing it is setting the comp to HD and attach everything to a null and resizing it.Â
another way is trying the built in script in after effects: file->scripts->scale composition.
see if that works for you.